Literature summary for 3.4.19.3 extracted from

Ito, K.; Inoue, T.; Takahashi, T.; Huang, H.S.; Esumi, T.; Hatakeyama, S.; Tanaka, N.; Nakamura, K.T.; Yoshimoto, T.
The mechanism of substrate recognition of pyroglutamyl-peptidase I from Bacillus amyloliquefaciens as determined by X-ray crystallography and site-directed mutagenesis (2001), J. Biol. Chem., 276, 18557-18562.

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Cloned(Commentary)

Cloned (Comment)	Organism
expression of mutant enzmyes F10Y, F10A, F13Y, F13A, F142Y and F142A	Bacillus amyloliquefaciens

Crystallization (Commentary)

Crystallization (Comment)	Organism
crystallographic analysis of enzyme-inhibitor complex with pyroglutaminal and of the mutant enzyme F142, hanging drop vapour diffusion method	Bacillus amyloliquefaciens

Protein Variants

Protein Variants	Comment	Organism
F10Y	the ratio of turnover number to Km-value is 4.6% of the wild-type value	Bacillus amyloliquefaciens
F13A	the ratio of turnover number to Km-value is 0.04% of the wild-type value	Bacillus amyloliquefaciens
F13Y	the ratio of turnover number to Km-value is 51.5% of the wild-type value	Bacillus amyloliquefaciens
F142A	the ratio of turnover number to Km-value is 0.06% of the wild-type value	Bacillus amyloliquefaciens
F142Y	the ratio of turnover number to Km-value is 81.3% of the wild-type value	Bacillus amyloliquefaciens

Inhibitors

Inhibitors	Comment	Organism	Structure
pyroglutaminal	-	Bacillus amyloliquefaciens

KM Value [mM]

KM Value [mM]	KM Value Maximum [mM]	Substrate	Comment	Organism	Structure
0.17	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142Y	Bacillus amyloliquefaciens
0.2	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F13Y	Bacillus amyloliquefaciens
0.21	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, wild-type enzyme	Bacillus amyloliquefaciens
0.55	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142A	Bacillus amyloliquefaciens
0.76	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F10Y	Bacillus amyloliquefaciens
1.46	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142Y	Bacillus amyloliquefaciens

Natural Substrates/ Products (Substrates)

Natural Substrates	Organism	Comment (Nat. Sub.)	Natural Products	Comment (Nat. Pro.)	Rev.	Reac.
pyroglutamyl-peptide + H2O	Bacillus amyloliquefaciens	the enzyme is able to specifically remove the amino-terminal pyroglutamyl residue protecting proteins or peptides from aminopeptidases	pyroglutamate + peptide	-	?

Organism

Organism	UniProt	Comment	Textmining
Bacillus amyloliquefaciens	-	-	-

Purification (Commentary)

Purification (Comment)	Organism
purification of mutant enzmyes F10Y, F10A, F13Y, F13A, F142Y and F142A	Bacillus amyloliquefaciens

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
L-pyroglutamyl-beta-naphthylamide + H2O	-	Bacillus amyloliquefaciens	L-pyroglutamate + beta-naphthylamine	-	?
additional information	the molecular recognition of pyroglutamic acid is achieved through two hydrogen bonds and an insertion in the hydrophobic pocket. In the pocket Phe10 is more important to the hydrophobic interaction than is Phe142 and furthermore Phe13 serves as an induced fit mechanism	Bacillus amyloliquefaciens	?	-	?
pyroglutamyl-peptide + H2O	the enzyme is able to specifically remove the amino-terminal pyroglutamyl residue protecting proteins or peptides from aminopeptidases	Bacillus amyloliquefaciens	pyroglutamate + peptide	-	?

Turnover Number [1/s]

Turnover Number Minimum [1/s]	Turnover Number Maximum [1/s]	Substrate	Comment	Organism	Structure
0.5	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142A	Bacillus amyloliquefaciens
0.8	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142Y	Bacillus amyloliquefaciens
54.7	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F10Y	Bacillus amyloliquefaciens
163	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F13Y	Bacillus amyloliquefaciens
210	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, mutant enzyme F142Y	Bacillus amyloliquefaciens
319	-	L-pyroglutamyl-beta-naphthylamide	pH 7.0, 37°C, wild-type enzyme	Bacillus amyloliquefaciens

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Release 2023.1 (January 2023)